The Human Organ Atlas

bioRxiv (Cold Spring Harbor Laboratory)

Abstract

We present the Human Organ Atlas (HOA), an open data repository making accessible multiscale 3D imaging of human organs. The repository also provides software tools and training resources enabling worldwide access, sharing, and analysis of these datasets, facilitating further research and the continued expansion of the HOA. The images are generated using a synchrotron imaging technique - Hierarchical Phase-Contrast Tomography (HiP-CT) that uses the ESRF's Extremely Brilliant Source, spanning whole organ imaging at around 20 μm/voxel with local volumes of interest within the intact organs imaged down to ~ 1 μm/voxel. This offers a comprehensive exploration of human anatomy, providing unparalleled insights into intricate structures and spatial relationships. The Human Organ Atlas offers researchers, clinicians, and educators a valuable resource for anatomical study, image analysis, medical education, and large-scale data mining.

Authors 22

1. Claire Walsh

   University College London

   Affiliation as printed

   Department of Mechanical Engineering, UCL, London, United Kingdom

   Deprtment of Mechnicl Engineering, UCL, London, United Kingdom

2. Joseph Brunet

   European Synchrotron Radiation Facility · University College London

   Affiliation as printed

   Department of Mechanical Engineering, UCL, London, United Kingdom

   ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

   Deprtment of Mechnicl Engineering, UCL, London, United Kingdom

   ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

3. David Stansby corresponding

   University College London

   Affiliation as printed

   Centre for Advanced Research Computing, UCL, London, United Kingdom

   Department of Mechanical Engineering, UCL, London, United Kingdom

   Centre for Advaned Researh Computing, UCL, London, United Kingdom,

4. Guillaume Gaisné

   European Synchrotron Radiation Facility

   Affiliation as printed

   ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

   ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

5. Yang Zhou

   University College London

   Affiliation as printed

   Department of Mechanical Engineering, UCL, London, United Kingdom

   Deprtment of Mechnicl Engineering, UCL, London, United Kingdom

6. Maximilian Ackermann

   Johannes Gutenberg University Mainz · University Medical Center of the Johannes Gutenberg University Mainz

   Affiliation as printed

   Institute of Functional and Clinical Anatomy, University Medical Center of the Johannes Gutenberg-University Mainz, Mainz, Germany

   Institute of Functional an Clinical Anatomy, University Meical Center of the Johannes Gutenberg-University Mainz, Mainz, Germany,

7. Alexandre Bellier

   Inserm · Université Grenoble Alpes

   Affiliation as printed

   University Grenoble Alpes, Department of Anatomy (LADAF), CIC INSERM 1406, Grenoble, France

   Univrsity Grnobl Alps, Dpartmnt of Anatomy (LADAF), CIC INSERM 1406, Grnobl, Franc,

8. Camille Berruyer

   University College London

   Affiliation as printed

   Department of Mechanical Engineering, UCL, London, United Kingdom

   Deprtment of Mechnicl Engineering, UCL, London, United Kingdom

9. Axel Bocciarelli

   European Synchrotron Radiation Facility

   Affiliation as printed

   ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

   ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

10. Marjolaine Bodin

    European Synchrotron Radiation Facility

    Affiliation as printed

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

11. Bernadette S. de Bakker

    Amsterdam UMC Location University of Amsterdam · Amsterdam University Medical Centers · Amsterdam Reproduction Development · University of Amsterdam

    Affiliation as printed

    Amsterdam Reproduction and Development research institute, Amsterdam, The Netherlands

    Amsterdam UMC location University of Amsterdam, Department of Obstetrics and Gynecology, Meibergdreef 9, Amsterdam, The Netherlands

    Amsterdam UMC location University o Amsterdam, Department o Obstetrics and Gynecology, Meibergdree 9, Amsterdam, The Netherlands

12. Hector Dejea

    European Synchrotron Radiation Facility

    Affiliation as printed

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

13. Alejandro De Maria Antolinos

    European Synchrotron Radiation Facility

    Affiliation as printed

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

14. Klaus Engel

    Siemens Healthineers (Germany)

    Affiliation as printed

    Siemens Healthineers AG Erlangen 91052, Germany

    Siemens Healtineers AG Erlangen 91052, Germany

15. Andrew Götz

    European Synchrotron Radiation Facility

    Affiliation as printed

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

16. Joseph Jacob

    University College London

    Affiliation as printed

    Satsuma Lab, Hawkes Institute, UCL, London, United Kingdom

    UCL Respiratory, UCL, London, United Kingdom

    UCL Respratory, UCL, London, Unted Kngdom,

17. Danny David Jonigk Aachen Institute of Pathology, University Medical Center

    Universitätsklinikum Aachen · German Center for Lung Research · RWTH Aachen University

    Affiliation as printed

    Biomedical Research in Endstage and Obstructive Lung Disease Hannover (BREATH), German Center for Lung Research (DZL), Hannover, Germany

    Institute of Pathology, University Medical Center RWTH University of Aachen, Aachen, Germany

    Biomedica Research in Endstage and Obstructive Lung Disease Hannover (BREATH), German Center for Lung Research (DZL), Hannover, Germany,

    Institute of Pathology, University Medical Center RWTH University of Aachen, Aachen, Germany,

18. Joanna Purzycka

    European Synchrotron Radiation Facility

    Affiliation as printed

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

19. Theresa Urban

    European Synchrotron Radiation Facility · University College London

    Affiliation as printed

    Department of Mechanical Engineering, UCL, London, United Kingdom

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenoble Cedex 9, France

    Deprtment of Mechnicl Engineering, UCL, London, United Kingdom

    ESRF, The European Synchrotron, 71 Avenue des Martyrs, CS40220, 38043 Grenole Cedex 9, France,

20. Stijn E. Verleden

    University of Antwerp

    Affiliation as printed

    Antwerp Surgical Training, Anatomy and Research Centre (ASTARC), University of Antwerp, Wilrijkn, Belgium

    Antwerp Surgical Training, Anatoy and Research Centre (ASTARC), University of Antwerp, Wilrijkn, Belgiu

21. Ruikang Xue

    University College London

    Affiliation as printed

    Department of Mechanical Engineering, UCL, London, United Kingdom

    Deprtment of Mechnicl Engineering, UCL, London, United Kingdom

22. Peter David Lee

    University College London

    Affiliation as printed

    Department of Mechanical Engineering, UCL, London, United Kingdom

    Deprtment of Mechnicl Engineering, UCL, London, United Kingdom